RosettaCommons / RosettaCommons/RFdiffusion

Designing a symmetric binder

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Python
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Description

Hi!! I would like to know your take on the following task:

Given a target domain (A) I would like to design a binder (B) which is also part of an omodimer.

Around a C2 axis, the result would look like two binders symmetrically sandwiched between two targets:

A1B1/B2A2

It's my understanding that in normal C2 symmetric design the denoising occurs around the axis itself, allowing to form the symmetric interaction between chains. In this case the C2 axis is at a defined length from A. The designed B should bind A on one side and contact its' own copy on the other. The C2 axis should be aligned to RFD frame (z axis) but other than that, I'm having trouble finding the correct syntax for this task. What I'm getting is somthing like this:

Image

Is there a way to do this?

Thanks for your help

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Research direction

Start by tracing the existing normal C2-symmetric design workflow and how the RFD frame’s z axis and axis-to-target distance are represented. Determine whether the requested A1B1/B2A2 arrangement is supported by existing input syntax; done means the required configuration is clear and can produce the stated symmetric binder arrangement.

Written by the indexing model from the issue text.

Assessment

Tech stack
python
Domain
machine-learning
Issue type
Feature
Difficulty
5/5
Estimated time
Over a week
Activity status
Quiet
Clarity
Needs clarification
Newbie friendliness
25/100

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